Genetic relatedness of multidrug resistant Escherichia coli isolated from humans, chickens and poultry environments

Aworh, Mabel Kamweli; Kwaga, Jacob K. P.; Hendriksen, René S.; Okolocha, Emmanuel C.; Thakur, Siddhartha

doi:10.21203/rs.3.rs-36732/v1

Cited by 2 publications

(2 citation statements)

References 28 publications

(42 reference statements)

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“…E. coli isolates in this study contained many molecular polymorphisms. MLST analysis revealed that the most common types were ST155, ST10, and ST48, which was consistent with a previous report (ST155: 8/110, ST48: 8/110, ST10: 6/110) (Aworh et al, 2021). In addition, Hoek et al suggested that ST155 and ST10 were most often found in broiler farms (Van Hoek et al, 2018).…”

Section: Similar Amr In Chickens and Farmssupporting

confidence: 89%

Similar Antimicrobial Resistance of Escherichia coli Strains Isolated from Retail Chickens and Poultry Farms

Tang

et al. 2021

Foodborne Pathogens and Disease

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Antimicrobial resistance (AMR) is a major public health challenge and spreads through humans, animals, and the environment. Many reports show that AMR genes (ARGs) or phenotypes can be transferred from food animals to humans. However, the level and correlation of AMR in different nodes of the poultry meat supply chain are still poorly understood. Herein, 225 Escherichia coli isolates were recovered from chilled chicken samples from markets (123) and chicken fecal samples from farms (102) in Zhejiang Province, China. The dominant sequence types (STs) were ST155 (8.89%), ST48 (7.56%), and ST10 (7.11%), which are common in chicken and fecal samples. Antimicrobial susceptibility testing (AST) analysis showed that the E. coli isolates from fecal samples and retail chickens were resistant to ampicillin (61.77% and 63.42%, respectively) and trimethoprim (56.87% and 52.85%). Moreover, 36.59% of the E. coli isolates from chilled chickens and 39.22% of the isolates from fecal samples were resistant to three or more antimicrobial agents. A total of 59 ARGs were identified in sequenced E. coli genomes, including the mcr-1 gene involved in colistin resistance. The E. coli from farms and markets could be clustered in the same branch according to core single nucleotide polymorphisms. In addition, toxin genes astA and hlyE were also predicted in 86.5% (32/37) and 13.5% (5/37) of the above genomes, respectively. Taken together, these findings demonstrated that E. coli isolates from markets and farms showed similar AMR patterns, suggesting that E. coli strains in markets may originate from farms.

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Section: Similar Amr In Chickens and Farmssupporting

confidence: 89%

Similar Antimicrobial Resistance of Escherichia coli Strains Isolated from Retail Chickens and Poultry Farms

Tang

et al. 2021

Foodborne Pathogens and Disease

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“…The high abundance of ARGs in chicken feces and resistome sharing between chickens and humans is consistent with existing literature, much of which has focused on occupational exposures in commercial settings. For example, recent work in Nigeria identified occupational exposure to chickens as a risk factor for multidrug-resistant E. coli among poultry workers and identified similar resistance patterns and identical plasmid replicons in E. coli recovered from chickens and poultry workers [70][71][72].…”

Section: Discussionmentioning

confidence: 99%

Differential overlap in human and animal fecal microbiomes and resistomes in rural versus urban Bangladesh

Hamzah

et al. 2021

Preprint

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Background Low- and middle-income countries (LMICs) bear the largest mortality burden due to antimicrobial-resistant infections. Small-scale animal production and free-roaming domestic animals are common in many LMICs, yet data on zoonotic exchange of gut bacteria and antimicrobial resistance genes (ARGs) in low-income communities are sparse. Differences between rural and urban communities in population density, antibiotic use, and cohabitation with animals likely influence the frequency of transmission of gut bacterial communities and ARGs between humans and animals. Here, we determined the similarity in gut microbiomes, using 16S rRNA gene amplicon sequencing, and resistomes, using long-read metagenomics, between humans, chickens, and goats in rural compared to urban Bangladesh. Results Gut microbiomes were more similar between humans and chickens in rural (where cohabitation is more common) compared to urban areas, but there was no difference for humans and goats. Urbanicity did not impact the similarity of human and animal resistomes; however, ARG abundance was higher in urban animals compared to rural animals. We identified substantial overlap of ARG alleles in humans and animals in both settings. Humans and chickens had more overlapping ARG alleles than humans and goats. All fecal hosts carried ARGs on contigs classified as potentially pathogenic bacteria, including Escherichia coli, Campylobacter jejuni, Clostridiodes difficile, and Klebsiella pneumoniae. Conclusions While the development of antimicrobial resistance in animal gut microbiomes and subsequent transmission to humans has been demonstrated in intensive farming environments and high-income countries, evidence of zoonotic exchange of antimicrobial resistance in LMIC communities is lacking. This research provides genomic evidence of overlap of antimicrobial resistance genes between humans and animals, especially in urban communities, and highlights chickens as important reservoirs of antimicrobial resistance. Chicken and human gut microbiomes were more similar in rural Bangladesh, where cohabitation is more common. Incorporation of long-read metagenomics enabled characterization of bacterial hosts of resistance genes, which has not been possible in previous culture-independent studies using only short-read sequencing. These findings highlight the importance of developing strategies for combatting antimicrobial resistance that account for chickens being reservoirs of ARGs in community environments, especially in urban areas.

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Genetic relatedness of multidrug resistant Escherichia coli isolated from humans, chickens and poultry environments

Cited by 2 publications

References 28 publications

Similar Antimicrobial Resistance of Escherichia coli Strains Isolated from Retail Chickens and Poultry Farms

Similar Antimicrobial Resistance of Escherichia coli Strains Isolated from Retail Chickens and Poultry Farms

Differential overlap in human and animal fecal microbiomes and resistomes in rural versus urban Bangladesh

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